CEITEC BRNO CZECH REPUBLIC central european institute of
CEITEC BRNO | CZECH REPUBLIC central european institute of technology CEITEC Genomics and proteomics at MU Jiří Fajkus www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC Genomics ü interested in GENOME – complete genetic info (DNA/RNA sequence) of an organism (3 Gb-human) ü ca. 25 000 human genes ü 2% genome www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC ü Potential of genomics : fast analysis of gene mutations and changes in gene expression (at the m. RNA level) detection of inherited disorders, pathogens, genetic manipulations, molecular oncology. . . ü Novel DNA sequencing platforms ü c. DNA microarrays www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC ü Why PROTEOMICS? ü Only limited repertoire of events directly depends on DNA sequence (25 000 genes several millions proteins ) 1 organism 1 genome many proteomes www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC translation transcription RNA DNA Protein m. RNA replication r. RNA t. RNA nc. RNA Genotype www. ceitec. cz Catalysis & regulation Phenotype
CEITEC BRNO | CZECH REPUBLIC www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC Core facility “Genomics and Proteomics” ü proteome analysis bacteria, plants, animals, human, stem cells, etc. The Desperate Man, Gustave Courbet, 1844 -45 ü protein characterization r YY-p pr pro nrot tei otei n ot in iprnprotein ee protein ote ein p tein in prote in t o r p ein protein rote pr otei n prote i ei roptro p prot -X pro in tei prote pnrotein n einin ein protein W-protein-Z n p www. ceitec. cz ein prot ot pro p n ei protein pr in rote X otperin
CEITEC BRNO | CZECH REPUBLIC Core facility “Genomics and Proteomics”: integration of sophisticated technologies ü isolation, separation of proteins ü identification of proteins, posttranslational modifications ü analysis of protein complexes ü mass spectrometry – major proteomic tool www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC CF Genomics & proteomics C E T I E C www. ceitec. cz clinical applications cooperation with industry biological research medical research Core facility “Genomics and Proteomics”
CEITEC BRNO | CZECH REPUBLIC Examples of present scientific projects ü Bacterial genetics and genomics ü Plant cytogenomics ü Molecular analysis of plant development ü Biology of telomeres ü Molecular diagnostics and therapy (collab. UH Brno, UH S. A. ) www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC Bacterial genetics and genomics ü Human, emerging and re-emerging pathogens ü Whole genome sequencing strategies ü Whole genome fingerprinting (physical mapping) ü Comparative genome sequencing (microarray) ü Pyrosequencing, Solexa sequencing, SOLi. D sequencing, Sanger sequencing ü Analyses of bacterial transcriptome ü Gene annotations ü Analyses of gene regulatory networks www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC Goals of whole-genome sequencing ü Identification of virulence factors (better treatment of infectious diseases) ü Identification of prominent bacterial antigens (development of new vaccines) ü Identification of unique genomic sequences (better diagnostics) ü Metagenomic sequencing (definition of human microbiome) ü Epidemiological studies (better preventive measures) www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC Transriptome prediction CGS sequencing DNA microarray www. ceitec. cz Physical mapping of the genome
CEITEC BRNO | CZECH REPUBLIC Plant Sciences at MU - Why plants? üScientific reasons: unique developmental model üPolitical and economical reasons: Plants as the only sustainable and self-renewable tool of energy conservation on Earth; Plants as a multipurpose and low-cost production system www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC Laboratory of Plant Cytogenomics Methodology ü construction of large insert DNA libraries ü high-throughput DNA sequencing ü genome comparisons on a sequence and chromosomal level - bioinformatics - molecular cytogenetics - comparative phylogenomics www. ceitec. cz Genetix Qpix system
CEITEC BRNO | CZECH REPUBLIC Laboratory of Plant Cytogenomics ü analysis of inter-species chromosome and genome collinearity ü karyotype and genome evolution within phylogenetic frameworks (phylogenomics) ü evolution of repetitive DNA elements and structure of plant genomes ü karyotype evolution and speciation www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC ü Molecular analysis of plant growth and development ü Functional genomics and proteomics of model plants (Arabidopsis) and crop plants (oil-seed rape) as a lowcost production systems for e. g. pharmaceutically active proteins (antibodies) and biomass production ü Analysis of the protein structure and protein engineering ü Identification of Proteins Regulating Plant Biomass Production - cytokinins and their receptors regulate biomass production in plants (in frame of collaboration with Korean colleagues) - application for patent cooperation treaty (PCT) submitted by MU and Korean partner. www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC ü Biology of telomeres üStructure, evolution and maintenance of plant telomeres (DNA, proteins, chromatin structure, epigenetics üTelomeres and telomerase in oncology diagnostics and therapy www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC ü Key processes in telomere biology (and in living cell, in general): interaction networks of proteins, DNA and RNA www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC Laboratory of separation and analysis of proteins and their complexes ü description of important protein complexes and their compositions ü kinetics and thermodynamics of protein-protein and protein-DNA interactions ü study of mechanisms of function and action of biomolecular complexes www. ceitec. cz
CEITEC BRNO | CZECH REPUBLIC SUMMARY – Genomics and proteomics ü Concentration of “universal” and sophisticated genomic and proteomic equipment and expertise in core facility – optimum cost-efficiency ü Potential for synergistic interactions among research groups, capability to solve complex projects ü Higher competitive strength and attractiveness to international R&D community raising of funds for science ü Emphasis on current internationally competitive research groups, yet flexibility in routing of future development ü Connection to major medical institutions (university hospitals, res. institutes), biotechnology incubators and institutes of Czech Academy of Sciences www. ceitec. cz
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